PGR-TK: Pangenome Research Tool Kit
☆21Mar 13, 2025Updated 11 months ago
Alternatives and similar repositories for pgr-tk
Users that are interested in pgr-tk are comparing it to the libraries listed below
Sorting:
- ☆16Mar 17, 2023Updated 2 years ago
- ☆101Apr 22, 2024Updated last year
- Genome browser hub for the T2T genomes and resources☆27Sep 26, 2025Updated 5 months ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated 6 months ago
- pangenome analyses for complete genomes of great apes (and gibbon)☆20Oct 12, 2024Updated last year
- Everything but the kitchen sink☆12Feb 6, 2025Updated last year
- ProSolo, variant calling from single cell DNA-seq data, or: bulk backing vocals for single cell solos.☆21Sep 1, 2021Updated 4 years ago
- A web-based, interactive pangenome visualization tool☆21Apr 10, 2023Updated 2 years ago
- Genome Assembly 102☆17Apr 23, 2025Updated 10 months ago
- ☆28Sep 28, 2024Updated last year
- This is a library C/Python/CLI for working with TAF (.taf,.taf.gz) and MAF (.maf) alignment files☆29Aug 26, 2025Updated 6 months ago
- ☆38Oct 6, 2025Updated 4 months ago
- A "Navie" Implementation of the Wavefront Algorithm For Sequence Alignment with Gap-Affine Scoring☆14Aug 7, 2023Updated 2 years ago
- A tool for sniffing out the differences in vari-Ants☆38Jan 28, 2026Updated last month
- Calculate genome wide average nucleotide identity (gwANI) for a multiFASTA alignment☆16Dec 5, 2018Updated 7 years ago
- Consensus genome annotation using OMA☆31Jan 14, 2026Updated last month
- Segmental Duplication Assembler (SDA).☆43May 7, 2023Updated 2 years ago
- BED QC tool (in the making)☆18Aug 19, 2022Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Jun 26, 2018Updated 7 years ago
- ☆33Nov 6, 2022Updated 3 years ago
- extract MSAs from genome variation graphs☆34Sep 20, 2020Updated 5 years ago
- A Rust library for storing generic genomic data by sorted chromosome name☆17Sep 26, 2024Updated last year
- ☆13May 27, 2025Updated 9 months ago
- Kmer Analysis of Pileups for Genotyping☆36Jan 30, 2026Updated last month
- Genome-wide TR catalog and variation clusters described in [Weisburd, Dolzhenko, et al. 2024]☆17Feb 19, 2026Updated last week
- syncmer graphs, and perhaps other sorts of sequence graphs☆24Jan 6, 2026Updated last month
- somatic SV calling on matched tumor-normal co-assembly graphs☆22Aug 1, 2024Updated last year
- ☆23Sep 9, 2025Updated 5 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆24Sep 12, 2025Updated 5 months ago
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- GFAffix identifies walk-preserving shared affixes in variation graphs and collapses them into a non-redundant graph structure.☆37May 29, 2025Updated 9 months ago
- your friendly pangenome graph genotyper☆10Feb 6, 2023Updated 3 years ago
- ☆68Feb 2, 2026Updated last month
- linearize and simplify variation graphs using blocked partial order alignment☆60Feb 25, 2026Updated last week
- ☆29Aug 7, 2025Updated 6 months ago
- gia: Genomic Interval Arithmetic☆66Aug 21, 2024Updated last year
- base-level dotplots from PAF alignments☆32Sep 18, 2025Updated 5 months ago
- Code repository for the T2T-Y paper☆24Jul 11, 2023Updated 2 years ago
- Transformer-based sequence correction method for genome assembly polishing☆99Mar 11, 2025Updated 11 months ago